Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatccttgctatcttaacaagctagaatcatgctgtcttgagcattttggtatcgataaaatctacactgccctctagatctgaaaatggtatcttttgtgtttcagGTATCGTCTTTTTCCATGAATAAGCCATATGCCCATATGAGTGCGATCTGGGTAGGTTTGGTTCCGGCACCATGCATGCCAGACAAAGCACTCTTGTACA

Basic information

species Zea mays
transcript GRMZM2G028685_T01
intron # 5
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|71311783|gb|DR792346.1|DR792346
EST:     TCGGAGCTTCTACTGAACGGTATTGTCACTCAGAAGCTAGAGTTCGCCAG                         GTATCGTCTTTTTCCATGAATAAGCCATATGCCCATATGAGTGCGATCTGG
genomic: TCGGAGCTTCTACTGAACGGTATTGTCACTCAGAAGCTAGAGTTCGCCAGgtacatcctt ... tgtgtttcagGTATCGTCTTTTTCCATGAATAAGCCATATGCCCATATGAGTGCGATCTGG
EST: gi|60339789|gb|DN206762.1|DN206762
EST:     TCGGAGCTTCTACTGAACGGTATTGTCACTCAGAAGCTAGAGTTCGCCAG                         GTATCGTCTTTTTCCATGAATAAGCCATATGCCCATATGAGTGCGATCTGG
genomic: TCGGAGCTTCTACTGAACGGTATTGTCACTCAGAAGCTAGAGTTCGCCAGgtacatcctt ... tgtgtttcagGTATCGTCTTTTTCCATGAATAAGCCATATGCCCATATGAGTGCGATCTGG
EST: gi|83278682|gb|DV942690.1|DV942690
EST:     TCGGAGCTTCTACTGAACGGTATTGTCACTCAGAAGCTAGAGTTCGCCAG                         GTATCGTCTTTTTCCATGAATAAGCCATATGCCCATATGAGTGCGATCTGG
genomic: TCGGAGCTTCTACTGAACGGTATTGTCACTCAGAAGCTAGAGTTCGCCAGgtacatcctt ... tgtgtttcagGTATCGTCTTTTTCCATGAATAAGCCATATGCCCATATGAGTGCGATCTGG
EST: gi|60343103|gb|DN210076.1|DN210076
EST:     TCGGAGCTTCTACTGAACGGTATTGTCACTCAGAAGCTAGAGTTCGCCAG                         GTATCGTCTTTTTCCATGAATAAGCCATATGCCCATATGAGTGCGATCTGG
genomic: TCGGAGCTTCTACTGAACGGTATTGTCACTCAGAAGCTAGAGTTCGCCAGgtacatcctt ... tgtgtttcagGTATCGTCTTTTTCCATGAATAAGCCATATGCCCATATGAGTGCGATCTGG
EST: gi|60350264|gb|DN217237.1|DN217237
EST:     TCGGAGCTTCTACTGAACGGTATTGTCACTCAGAAGCTAGAGTTCGCCAG                         GTATCGTCTTTTTCCATGAATAAGCCATATGCCCATATGAGTGCGATCTGG
genomic: TCGGAGCTTCTACTGAACGGTATTGTCACTCAGAAGCTAGAGTTCGCCAGgtacatcctt ... tgtgtttcagGTATCGTCTTTTTCCATGAATAAGCCATATGCCCATATGAGTGCGATCTGG
EST: gi|101383529|gb|EB813820.1|EB813820
EST:     TCGGAGCTTCTACTGAACGGTATTGTCACTCAGAAGCTAGAGTTCGCCAG                         GTATCGTCTTTTTCCATGAATAAGCCATATGCCCATATGAGTGCGATCTGG
genomic: TCGGAGCTTCTACTGAACGGTATTGTCACTCAGAAGCTAGAGTTCGCCAGgtacatcctt ... tgtgtttcagGTATCGTCTTTTTCCATGAATAAGCCATATGCCCATATGAGTGCGATCTGG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 22 (upstream exon), 28 (downstream exon)
Score: 6

GTCTGGAAGTGTTTGACTCGGAGCTTCTACTGAACGGTATTGTCACTCAGAAGCTAGAGTTCGCCAGgtacatcctt ... tgtgtttcagGTATCGTCTTTTTCCATGAATAAGCCATATGCCCATATGAGTGCGATCTGGGTAGGTTTGGTTCCGGCACCATGCATGCCAGACAAAGCACTCTTGTACA




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgataaaatctacactgccctctagatctgaaaatggtatcttttgtgtttcagGTATCGTCTTTTTCCATGAATAAGCCATATGCCCATATGAGTGCGATCTGGGTAGGTTTGGTTCCGGCACCATGCATGCCAGACAAAGCACTCTTGTACA
                                      tatctttt  CT-rich tract
     aaaatcta  TA-rich tract